Rh5AG227600

3-hydroxyacyl-CoA dehydrogenase, C-terminal domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0015035
Physical Location & Seq
Forward (+)
27345049 .. 27347952
2904 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG227600.1

Sequence Viewer

Length: 891 bp
ATGTCGGAGATGAAGTCAATTGCGGTGGTGGGCGGCGGCCAAATGGGTTCAGGTATAGCCCAACTCGCCGCCATGCACGGATGCGATGCTTGGCTCCTAGACACCGACCCTAGTGCTCTAACCAGAGCCAACAAGTCCATCACCCACTCCATCCAGCGCCTCGTTTCCAAAGGACAACTCACTCAGGCTGTTGGTAAAGATGCTTTGGGCCGTCTGCGGTATACCTCAAACTTGCAAGAACTTTCTTCAGCAGATGTTATTATTGAAGCTATTGTGGAGTCTGAAGATGTGAAGAAAAAGCTATTTATTGAACTAGATAAGATCACAAAAAGTTCTGCCATACTGGCATCTAATACAAGTTCCATCTCCATTACTCGTCTGGCATCAGCAACTAGCAGGCCGAAGCAGGTGATTGGCATGCATTTTATGAACCCTCCTCCTATAATGAAACTTGTTGAGATCGTGCGAGGAGCAGACACATCCGATGAGACTTTTAATGCTACAAAAGCATTGGCAGAAAGGTTTGGCAAGACAGTGATATGCTCTCGGGATTATGCCGGCTTTGTTGTAAACAGGATCCTAATGCCGATGATAAATGAAGCATTTTTTACACTCTATACTGGTGTGGCAACAAAGGAAGACATTGATGTGGGAATGAAGTTGGGAACAAATCATCCAATGGGTCCTTTAGAGCTTGCAGATTTCATTGGATTGGATGTCTGCTTATCAATCATGAAAGTTCTCCATGCTGGCCTTGGCGACAGTAAATATGCTCCCTGCCCACTTCTTGTACAGTATGTTGATGCAGGTCGACTCGGAAGAAAACGAGGTATTGGGGTATACGATTATTGTCAAATGCCTGATGCAGTAAAACCTTCTTCCAAGCTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00360 ko00362 ko00650 ko01100 ko01120 map00360 map00362 map00650 map01100 map01120
Pfam Domains
Protein Families
3HCDH 3HCDH_N

Protein Analysis

296

Amino Acids

31.91

Weight (kDa)

8.5

Isoelectric Point (pI)

31.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
3HCDH_N PF02737 7 - 184 7.8e-64 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
3HCDH PF00725 187 - 283 1.9e-35 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0015035)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G15290 AT3G15290
fragaria_vesca FvH4_3g19690
malus_domestica MD11G1251600.v1.1
prunus_persica Prupe.4G177500_v2.0.a1 Prupe.4G177500_v2.0.a1
pyrus_communis pycom11g22290
rosa_chinensis RchiOBHm_Chr5g0032991
rosa_laevigata RLG00000033441
rosa_multiflora Rmu_sc0000986.1_g000019
rosa_roxburghii Rroxscaffold_1G00047050
rosa_rugosa Rorug05G0134700
rosa_samantha Rh5AG227600 Rh5BG229100 Rh5DG233800
rosa_wichuraiana Rw5G020840

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 397
Acc36I ACCTGC 2 cut(s) 397, 797
AccI GTMKAC 3 cut(s) 221, 811, 840
AciI CCGC 5 cut(s) 23, 33, 36, 69, 217
AclWI GGATC 2 cut(s) 571, 584
AcoI YGGCCR 1 cut(s) 37
AcuI CTGAAG 2 cut(s) 231, 303
AfaI GTAC 1 cut(s) 792
AgsI TTSAA 2 cut(s) 266, 311
AloI GAACNNNNNNTCC 2 cut(s) 658, 690
AluBI AGCT 4 cut(s) 269, 301, 694, 886
AluI AGCT 4 cut(s) 269, 301, 694, 886
Alw21I GWGCWC 1 cut(s) 118
Alw26I GTCTC 1 cut(s) 482
AlwI GGATC 2 cut(s) 571, 584
Ama87I CYCGRG 1 cut(s) 546
AoxI GGCC 4 cut(s) 37, 208, 398, 751
AspLEI GCGC 1 cut(s) 159
AspS9I GGNCC 2 cut(s) 208, 683
AsuHPI GGTGA 2 cut(s) 133, 421
AvaI CYCGRG 1 cut(s) 546
AvaII GGWCC 1 cut(s) 683
BamHI GGATCC 1 cut(s) 576
BbsI GAAGAC 1 cut(s) 645
Bbv12I GWGCWC 1 cut(s) 118
BccI CCATC 3 cut(s) 146, 158, 371
BceAI ACGGC 1 cut(s) 195
BcgI CGANNNNNNTGC 2 cut(s) 95, 129
BcoDI GTCTC 1 cut(s) 482
BfaI CTAG 4 cut(s) 98, 111, 314, 393
BfoI RGCGCY 1 cut(s) 160
BfuAI ACCTGC 2 cut(s) 397, 797
BglI GCCNNNNNGGC 1 cut(s) 344
BisI GCNGC 3 cut(s) 34, 37, 69
BlsI GCNGC 3 cut(s) 35, 38, 70
Bme18I GGWCC 1 cut(s) 683
BmeT110I CYCGRG 1 cut(s) 546
BmgT120I GGNCC 2 cut(s) 208, 683
BmiI GGNNCC 3 cut(s) 95, 578, 684
BmsI GCATC 7 cut(s) 71, 76, 190, 356, 392, 793, 853
BpiI GAAGAC 1 cut(s) 645
BsaJI CCNNGG 1 cut(s) 754
BsaXI ACNNNNNCTCC 1 cut(s) 29
Bse118I RCCGGY 1 cut(s) 557
Bse1I ACTGG 2 cut(s) 348, 625
BseDI CCNNGG 1 cut(s) 754
BseGI GGATG 5 cut(s) 86, 150, 479, 673, 721
BseMII CTCAG 1 cut(s) 197
BseNI ACTGG 2 cut(s) 348, 625
BseRI GAGGAG 2 cut(s) 426, 483
BshFI GGCC 4 cut(s) 39, 210, 400, 753
BsiHKAI GWGCWC 1 cut(s) 118
BsiHKCI CYCGRG 1 cut(s) 546
BsiSI CCGG 1 cut(s) 558
BsmAI GTCTC 1 cut(s) 482
BsnI GGCC 4 cut(s) 39, 210, 400, 753
BsoBI CYCGRG 1 cut(s) 546
Bsp1286I GDGCHC 1 cut(s) 118
Bsp1407I TGTACA 1 cut(s) 790
Bsp143I GATC 3 cut(s) 321, 459, 576
BspACI CCGC 5 cut(s) 23, 33, 36, 69, 217
BspANI GGCC 4 cut(s) 39, 210, 400, 753
BspCNI CTCAG 1 cut(s) 196
BspHI TCATGA 1 cut(s) 732
BspLI GGNNCC 3 cut(s) 95, 578, 684
BspMI ACCTGC 2 cut(s) 397, 797
BspPI GGATC 2 cut(s) 571, 584
BsrFI RCCGGY 1 cut(s) 557
BsrGI TGTACA 1 cut(s) 790
BsrI ACTGG 2 cut(s) 348, 625
BssAI RCCGGY 1 cut(s) 557
BssECI CCNNGG 1 cut(s) 754
BssMI GATC 3 cut(s) 321, 459, 576
BssNAI GTATAC 2 cut(s) 222, 841
BssT1I CCWWGG 1 cut(s) 754
Bst1107I GTATAC 2 cut(s) 222, 841
Bst4CI ACNGT 3 cut(s) 535, 764, 795
BstAUI TGTACA 1 cut(s) 790
BstC8I GCNNGC 5 cut(s) 398, 419, 559, 696, 751
BstDEI CTNAG 1 cut(s) 183
BstF5I GGATG 5 cut(s) 86, 150, 479, 673, 721
BstH2I RGCGCY 1 cut(s) 160
BstHHI GCGC 1 cut(s) 159
BstKTI GATC 3 cut(s) 324, 462, 579
BstMAI GTCTC 1 cut(s) 482
BstMBI GATC 3 cut(s) 321, 459, 576
BstMWI GCNNNNNNNGC 3 cut(s) 65, 344, 506
BstNSI RCATGY 1 cut(s) 421
BstV2I GAAGAC 1 cut(s) 645
BstX2I RGATCY 1 cut(s) 576
BstYI RGATCY 1 cut(s) 576
BstZ17I GTATAC 2 cut(s) 222, 841
BsuRI GGCC 4 cut(s) 39, 210, 400, 753
BtgZI GCGATG 1 cut(s) 99
BtsCI GGATG 5 cut(s) 86, 150, 479, 673, 721
BtsIMutI CAGTG 1 cut(s) 540
BveI ACCTGC 2 cut(s) 397, 797
Cac8I GCNNGC 5 cut(s) 398, 419, 559, 696, 751
CciI TCATGA 1 cut(s) 732
CfoI GCGC 1 cut(s) 159
Cfr10I RCCGGY 1 cut(s) 557
Cfr13I GGNCC 2 cut(s) 208, 683
Csp6I GTAC 1 cut(s) 791
CspCI CAANNNNNGTGG 2 cut(s) 6, 41
CviAII CATG 4 cut(s) 73, 418, 733, 746
CviQI GTAC 1 cut(s) 791
DdeI CTNAG 1 cut(s) 183
DpnI GATC 3 cut(s) 323, 461, 578
DpnII GATC 3 cut(s) 321, 459, 576
EaeI YGGCCR 1 cut(s) 37
Eco130I CCWWGG 1 cut(s) 754
Eco47I GGWCC 1 cut(s) 683
Eco57I CTGAAG 2 cut(s) 231, 303
Eco88I CYCGRG 1 cut(s) 546
EcoO109I RGGNCCY 1 cut(s) 683
EcoT14I CCWWGG 1 cut(s) 754
EcoT22I ATGCAT 1 cut(s) 423
ErhI CCWWGG 1 cut(s) 754
FaeI CATG 4 cut(s) 76, 421, 736, 749
FatI CATG 4 cut(s) 72, 417, 732, 745
FblI GTMKAC 3 cut(s) 221, 811, 840
Fnu4HI GCNGC 3 cut(s) 34, 37, 69
FokI GGATG 5 cut(s) 93, 137, 466, 660, 728
Fsp4HI GCNGC 3 cut(s) 34, 37, 69
FspBI CTAG 4 cut(s) 98, 111, 314, 393
GlaI GCGC 1 cut(s) 158
GluI GCNGC 3 cut(s) 34, 37, 69
HaeII RGCGCY 1 cut(s) 160
HaeIII GGCC 4 cut(s) 39, 210, 400, 753
HapII CCGG 1 cut(s) 558
HhaI GCGC 1 cut(s) 159
Hin1II CATG 4 cut(s) 76, 421, 736, 749
Hin6I GCGC 1 cut(s) 157
HinP1I GCGC 1 cut(s) 157
HincII GTYRAC 1 cut(s) 812
HindII GTYRAC 1 cut(s) 812
HindIII AAGCTT 1 cut(s) 884
HinfI GANTC 2 cut(s) 278, 813
HpaII CCGG 1 cut(s) 558
HphI GGTGA 2 cut(s) 133, 421
Hpy166II GTNNAC 4 cut(s) 222, 571, 812, 841
Hpy188I TCNGA 4 cut(s) 7, 283, 484, 818
Hpy188III TCNNGA 2 cut(s) 548, 733
Hpy8I GTNNAC 4 cut(s) 222, 571, 812, 841
HpyAV CCTTC 1 cut(s) 885
HpyCH4III ACNGT 3 cut(s) 535, 764, 795
HpyCH4V TGCA 6 cut(s) 76, 235, 421, 698, 806, 866
HpyF10VI GCNNNNNNNGC 3 cut(s) 65, 344, 506
HpyF3I CTNAG 1 cut(s) 183
Hsp92II CATG 4 cut(s) 76, 421, 736, 749
HspAI GCGC 1 cut(s) 157
KroI GCCGGC 1 cut(s) 557
KroNI GCCGGC 1 cut(s) 559
Kzo9I GATC 3 cut(s) 321, 459, 576
LmnI GCTCC 3 cut(s) 99, 470, 778
LweI GCATC 7 cut(s) 71, 76, 190, 356, 392, 793, 853
MaeI CTAG 4 cut(s) 98, 111, 314, 393
MalI GATC 3 cut(s) 323, 461, 578
MboI GATC 3 cut(s) 321, 459, 576
MboII GAAGA 6 cut(s) 237, 296, 304, 650, 831, 870
MfeI CAATTG 1 cut(s) 18
MflI RGATCY 1 cut(s) 576
MhlI GDGCHC 1 cut(s) 118
MluCI AATT 1 cut(s) 18
MlyI GAGTC 2 cut(s) 287, 807
MnlI CCTC 6 cut(s) 170, 235, 444, 447, 461, 821
Mph1103I ATGCAT 1 cut(s) 423
MroNI GCCGGC 1 cut(s) 557
MseI TTAA 1 cut(s) 495
MslI CAYNNNNRTG 1 cut(s) 647
MspI CCGG 1 cut(s) 558
MunI CAATTG 1 cut(s) 18
MwoI GCNNNNNNNGC 3 cut(s) 65, 344, 506
NaeI GCCGGC 1 cut(s) 559
NdeII GATC 3 cut(s) 321, 459, 576
NgoMIV GCCGGC 1 cut(s) 557
NlaIII CATG 4 cut(s) 76, 421, 736, 749
NlaIV GGNNCC 3 cut(s) 95, 578, 684
NsiI ATGCAT 1 cut(s) 423
NspI RCATGY 1 cut(s) 421
PaeI GCATGC 1 cut(s) 421
PagI TCATGA 1 cut(s) 732
PaqCI CACCTGC 1 cut(s) 397
PdiI GCCGGC 1 cut(s) 559
PkrI GCNGC 3 cut(s) 35, 38, 70
PleI GAGTC 2 cut(s) 286, 807
PpsI GAGTC 2 cut(s) 286, 807
PpuMI RGGWCCY 1 cut(s) 683
Psp5II RGGWCCY 1 cut(s) 683
PspN4I GGNNCC 3 cut(s) 95, 578, 684
PspPI GGNCC 2 cut(s) 208, 683
PspPPI RGGWCCY 1 cut(s) 683
PsuI RGATCY 1 cut(s) 576
RsaI GTAC 1 cut(s) 792
RsaNI GTAC 1 cut(s) 791
RseI CAYNNNNRTG 1 cut(s) 647
SalI GTCGAC 1 cut(s) 810
SaqAI TTAA 1 cut(s) 495
SatI GCNGC 3 cut(s) 34, 37, 69
Sau3AI GATC 3 cut(s) 321, 459, 576
Sau96I GGNCC 2 cut(s) 208, 683
SchI GAGTC 2 cut(s) 287, 807
SduI GDGCHC 1 cut(s) 118
SfaNI GCATC 7 cut(s) 71, 76, 190, 356, 392, 793, 853
SinI GGWCC 1 cut(s) 683
SmiMI CAYNNNNRTG 1 cut(s) 647
SphI GCATGC 1 cut(s) 421
Sse9I AATT 1 cut(s) 18
SsiI CCGC 5 cut(s) 23, 33, 36, 69, 217
SspMI CTAG 4 cut(s) 98, 111, 314, 393
StyI CCWWGG 1 cut(s) 754
TaaI ACNGT 3 cut(s) 535, 764, 795
TaqI TCGA 1 cut(s) 811
TasI AATT 1 cut(s) 18
TatI WGTACW 1 cut(s) 790
TauI GCSGC 3 cut(s) 36, 39, 71
Tru1I TTAA 1 cut(s) 495
Tru9I TTAA 1 cut(s) 495
TscAI CASTG 1 cut(s) 540
TspDTI ATGAA 7 cut(s) 26, 443, 461, 612, 671, 694, 749
TspGWI ACGGA 1 cut(s) 93
TspRI CASTG 1 cut(s) 540
VpaK11BI GGWCC 1 cut(s) 683
XceI RCATGY 1 cut(s) 421
XcmI CCANNNNNNNNNTGG 2 cut(s) 376, 752
XmiI GTMKAC 3 cut(s) 221, 811, 840
XspI CTAG 4 cut(s) 98, 111, 314, 393
Zsp2I ATGCAT 1 cut(s) 423
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.